2l2u - Revision history

OCA at 12:07, 10 September 2015

2015-09-10T12:07:21Z

←Older revision		Revision as of 12:07, 10 September 2015
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	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=3DR:1,2-DIDEOXYRIBOFURANOSE-5-PHOSPHATE'>3DR</scene></td></tr>		</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=3DR:1,2-DIDEOXYRIBOFURANOSE-5-PHOSPHATE'>3DR</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ycw\|1ycw]], [[1yct\|1yct]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ycw\|1ycw]], [[1yct\|1yct]]</td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2l2u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2l2u OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2l2u RCSB], [http://www.ebi.ac.uk/pdbsum/2l2u PDBsum]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2l2u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2l2u OCA], [http://pdbe.org/2l2u PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2l2u RCSB], [http://www.ebi.ac.uk/pdbsum/2l2u PDBsum]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 2l2u" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 06:39, 22 January 2015

2015-01-22T06:39:03Z

←Older revision		Revision as of 06:39, 22 January 2015
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Hazel, R D.]]	+	[[Category: Hazel, R D]]
-	[[Category: Santos, C de los.]]	+	[[Category: Santos, C de los]]
	[[Category: Abasic lesion]]		[[Category: Abasic lesion]]
	[[Category: Bistranded dna lesion]]		[[Category: Bistranded dna lesion]]

OCA at 11:26, 20 October 2014

2014-10-20T11:26:55Z

←Older revision		Revision as of 11:26, 20 October 2014
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-	[[~~Image:~~2l2u.~~png~~\|~~left~~\|~~200px~~]]	+	==NMR Solution Structures of +3 (5' staggered) Bistranded Abasic Site Lesions in DNA==
		+	<StructureSection load='2l2u' size='340' side='right' caption='[[2l2u]], [[NMR_Ensembles_of_Models \| 4 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2l2u]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2L2U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2L2U FirstGlance]. <br>
		+	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=3DR:1,2-DIDEOXYRIBOFURANOSE-5-PHOSPHATE'>3DR</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ycw\|1ycw]], [[1yct\|1yct]]</td></tr>
		+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2l2u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2l2u OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2l2u RCSB], [http://www.ebi.ac.uk/pdbsum/2l2u PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Ionizing radiation produces a distinctive pattern of bistranded clustered lesions in DNA. A relatively low number of clustered lesions may be lethal to cells when compared to a larger number of single lesions. Enzyme cleavage experiments suggest that the orientation of bistranded lesions causes differential recognition and removal of these lesions. Like that of a previous study of bistranded abasic site lesion [Hazel, R. D., Tian, K., and de los Santos, C. (2008) Biochemistry 47, 11909-11919], the aim of this investigation was to determine the structures of two DNA duplexes each containing two synthetic apurinic/apyrimidinic (AP) residues, positioned on opposite strands and separated by two base pairs. In the first duplex, the AP residues are staggered in the 3' orientation [-3 duplex, (AP)(2)-3 duplex], while in the second duplex, the AP residues are staggered in the 5' orientation [+3 duplex, (AP)(2)+3 duplex]. NOESY spectra recorded in 100 and 10% D(2)O buffer solutions allowed the assignment of the nonexchangeable and exchangeable protons, respectively, for each duplex. Cross-peak connectivity in the nonexchangeable proton spectra indicates that the duplex is a regular right-handed helix with the AP residues and orphan bases located inside the duplexes. The exchangeable proton spectra establish the formation of Watson-Crick G.C alignment for the two base pairs between the lesion sites in both duplexes. Distance-restrained molecular dynamics simulation confirmed the intrahelical orientations of the AP residues. The proximity of the AP residues across the minor groove of the -3 duplex and across the major groove in the +3 duplex is similar to their locations in the case of -1 and +1 clusters. This difference in structure may be a key factor in the differential recognition of bistranded AP lesions by human AP endonuclease.

-	~~{{STRUCTURE_2l2u\| PDB=2l2u \| SCENE= }}~~	+	NMR solution structures of clustered abasic site lesions in DNA: structural differences between 3'-staggered (-3) and 5'-staggered (+3) bistranded lesions.,Hazel RD, de los Santos C Biochemistry. 2010 Oct 19;49(41):8978-87. PMID:20825249<ref>PMID:20825249</ref>

-	~~===NMR Solution Structures~~ of ~~+3 (5' staggered) Bistranded Abasic Site Lesions in DNA===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_20825249}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[2l2u]] is a 2 chain structure~~. ~~Full experimental information is available from [http://oca~~.~~weizmann~~.~~ac.il~~/~~oca-bin/ocashort?id=2L2U OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:020825249<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Hazel, R D.]]		[[Category: Hazel, R D.]]
	[[Category: Santos, C de los.]]		[[Category: Santos, C de los.]]

OCA: Protected "2l2u" [edit=sysop:move=sysop]

2013-01-07T11:58:31Z

Protected "2l2u" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:58, 7 January 2013

OCA at 11:58, 7 January 2013

2013-01-07T11:58:24Z

←Older revision		Revision as of 11:58, 7 January 2013
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-	~~{{Seed}}~~	+	[[Image:2l2u.png\|left\|200px]]
-	[[Image:2l2u.~~jpg~~\|left\|200px]]	+

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2l2u", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_2l2u\| PDB=2l2u \| SCENE= }}		{{STRUCTURE_2l2u\| PDB=2l2u \| SCENE= }}

	===NMR Solution Structures of +3 (5' staggered) Bistranded Abasic Site Lesions in DNA===		===NMR Solution Structures of +3 (5' staggered) Bistranded Abasic Site Lesions in DNA===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_20825249}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 20825249 is the PubMed ID number.
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	{{ABSTRACT_PUBMED_20825249}}		{{ABSTRACT_PUBMED_20825249}}

	==About this Structure==		==About this Structure==
-	~~2L2U~~ is a 2 ~~chains~~ structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2L2U OCA].	+	[[2l2u]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2L2U OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~20825249~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:020825249</ref><references group="xtra"/>
	[[Category: Hazel, R D.]]		[[Category: Hazel, R D.]]
	[[Category: Santos, C de los.]]		[[Category: Santos, C de los.]]
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	[[Category: Ionizing radiation]]		[[Category: Ionizing radiation]]
	[[Category: Multiple dna damage]]		[[Category: Multiple dna damage]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Nov 3 11:04:54 2010''

OCA at 07:54, 3 November 2010

2010-11-03T07:54:17Z

←Older revision		Revision as of 07:54, 3 November 2010
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-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:2l2u.jpg\|left\|200px]]

-	The ~~entry 2l2u~~ is ~~ON HOLD~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_2l2u", creates the "Structure Box" on the page.
		+	You may change the PDB parameter (which sets the PDB file loaded into the applet)
		+	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
		+	or leave the SCENE parameter empty for the default display.
		+	-->
		+	{{STRUCTURE_2l2u\| PDB=2l2u \| SCENE= }}

-	~~Authors: Hazel, R.D., de los Santos, C.~~	+	===NMR Solution Structures of +3 (5' staggered) Bistranded Abasic Site Lesions in DNA===

-	Description: NMR Solution Structures of +3 (5' staggered) Bistranded Abasic Site Lesions in DNA

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Sep 15 10~~:27:06 2010''	+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_20825249}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 20825249 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_20825249}}
		+
		+	==About this Structure==
		+	2L2U is a 2 chains structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2L2U OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:20825249</ref><references group="xtra"/>
		+	[[Category: Hazel, R D.]]
		+	[[Category: Santos, C de los.]]
		+	[[Category: Abasic lesion]]
		+	[[Category: Bistranded dna lesion]]
		+	[[Category: Clustered dna damage]]
		+	[[Category: Dna]]
		+	[[Category: Ionizing radiation]]
		+	[[Category: Multiple dna damage]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Nov 3 11:04:54 2010''

OCA: New page: '''Unreleased structure''' The entry 2l2u is ON HOLD Authors: Hazel, R.D., de los Santos, C. Description: NMR Solution Structures of +3 (5' staggered) Bistranded Abasic Site Lesions in...

2010-09-15T07:18:24Z

New page: '''Unreleased structure''' The entry 2l2u is ON HOLD Authors: Hazel, R.D., de los Santos, C. Description: NMR Solution Structures of +3 (5' staggered) Bistranded Abasic Site Lesions in...

New page

'''Unreleased structure'''

The entry 2l2u is ON HOLD

Authors: Hazel, R.D., de los Santos, C.

Description: NMR Solution Structures of +3 (5' staggered) Bistranded Abasic Site Lesions in DNA

''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Sep 15 10:27:06 2010''